RNA id: TCONS_00008386


Basic Information

Item Value
RNA id TCONS_00008386
length 1160
lncRNA type inter_gene
GC content 0.41
exon number 4
gene id XLOC_003210
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 6808096 ~ 6816005 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tttcgttttaagttaataagcagaataacagatgagtttccgttttttctgccaacagaataaacagaaaaacgaaatattcatcgtttttctgatgtttcgttttccgtaataaaaggaatgtAACTGCCCATGATTTAATGTACTCGCTTTGCTTGCCCTAATTGgagtcaccacaggagggcgctctAGACTAATAGGATTTAAGTGAGACAAAGCAGAGTAAGAGCAATTCACGTTTGTTCATGAGCTAACAGGTACAGCTCGGAAGAATGCCTTGAGCTTTTAGTGTCCCTTCGGCAAGCAGAGCGagTTTTACGGTGCTTTGGTGCTTTTGGTGCCTTTGGTCTTTTGATGCTTCTGTGTATACAACAAAGAACTGAGACGATGATTTATGTGATGAGCTTTATTGCATCCAAGTAAACCTTTTTAAATGCACCCGTCAAAAACTCTCTGCCTATTCTTTGAAAGCTGAAGGGCTGCTACAGTAAAACTCGCTGCTACACATGGCGTTTGCATCAGGTTGGTGATTCATCACATGAGTGTCATGTAACAAGCCTTCATCTCGTCTGTGGCACTGCATGGTATCTACAACAGACTGAATCTACACTAGGACGGCGACTTTACACGGTTAACTGGGAAAACTCTTCATGAAAGACTGAAAGGTGACTGCAAACAAACGTTGTGGACTCAGAGGTGTTTAAATTTGTCTGATGTAAGCAGGTTGCTGATTTAAGTTGTAGACAGACAAAATGGACGACACAGCGGAGCAAATGGCGGCACAAGCAAGTCAAAGTTTTACGGTGCTTTGGTGCTTTTGGTGCCTTTGGTCTTTTGATGCTTCTGTGTATACAACAAAGAACTGAGACGATGATTTATGTGATGAGCTTTATTGCATCCAAGTAAACCTTTTTAAATGCACCCGTCAAAAACTCTCTGCCTATTCTTTGAAAGCTGAAGGGCTGCTacaaggaataatcaaatgaacggatgatacacggaccacAGCTGTCTTCCATATATCTTCCTTTGTATTCAATAGAAAACATGAAACTCGTAAAGCTTTAcaagcacttgagggtgagtaaataagttCATTTTTTCTACGAACTCGCTCTTTAAAGTCACAAGACTTCTGCAAGTAACTAGCATAGCAACAT

Function

GO:

id name namespace
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0048762 mesenchymal cell differentiation biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0065007 biological regulation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060896 neural plate pattern specification biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060897 neural plate regionalization biological_process
GO:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0035282 segmentation biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0035050 embryonic heart tube development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0048568 embryonic organ development biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0050794 regulation of cellular process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0072045 convergent extension involved in nephron morphogenesis biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006322 lncRNA upstream 129887 6658656 ~ 6678209 (+) True XLOC_003208
TCONS_00006321 lncRNA upstream 154473 6651134 ~ 6653623 (+) True XLOC_003207
TCONS_00008533 lncRNA upstream 165609 6636422 ~ 6642487 (+) True XLOC_003206
TCONS_00008532 lncRNA upstream 295078 6460624 ~ 6513018 (+) False XLOC_003205
TCONS_00006319 lncRNA upstream 295078 6460624 ~ 6513018 (+) True XLOC_003205
TCONS_00006335 lncRNA downstream 130586 6946591 ~ 6953380 (+) False XLOC_003215
TCONS_00006336 lncRNA downstream 130792 6946797 ~ 6956379 (+) True XLOC_003215
TCONS_00006337 lncRNA downstream 279171 7095176 ~ 7103536 (+) True XLOC_003216
TCONS_00006338 lncRNA downstream 333066 7149071 ~ 7152007 (+) False XLOC_003217
TCONS_00008534 lncRNA downstream 333183 7149188 ~ 7152007 (+) False XLOC_003217
TCONS_00006326 mRNA upstream 13952 6752468 ~ 6794144 (+) False XLOC_003209
TCONS_00006323 mRNA upstream 14721 6684968 ~ 6793375 (+) False XLOC_003209
TCONS_00006327 mRNA upstream 14721 6764207 ~ 6793375 (+) True XLOC_003209
TCONS_00006324 mRNA upstream 15204 6739433 ~ 6792892 (+) False XLOC_003209
TCONS_00006325 mRNA upstream 15204 6752468 ~ 6792892 (+) False XLOC_003209
TCONS_00006328 mRNA downstream 3045 6819050 ~ 6850593 (+) True XLOC_003211
TCONS_00006330 mRNA downstream 64996 6881001 ~ 6889563 (+) False XLOC_003213
TCONS_00006331 mRNA downstream 66044 6882049 ~ 6895981 (+) False XLOC_003213
TCONS_00006332 mRNA downstream 66357 6882362 ~ 6891090 (+) True XLOC_003213
TCONS_00006333 mRNA downstream 86301 6902306 ~ 6934585 (+) False XLOC_003214
TCONS_00006310 other upstream 480003 6327978 ~ 6328093 (+) True XLOC_003199
TCONS_00006305 other upstream 584797 6209170 ~ 6223299 (+) False XLOC_003195
TCONS_00006306 other upstream 584797 6209911 ~ 6223299 (+) False XLOC_003195
TCONS_00006299 other upstream 663453 6136321 ~ 6144643 (+) True XLOC_003192
TCONS_00006283 other upstream 770543 6034242 ~ 6037553 (+) True XLOC_003188
TCONS_00006329 other downstream 46247 6862252 ~ 6862368 (+) True XLOC_003212
TCONS_00006340 other downstream 333984 7149989 ~ 7150082 (+) False XLOC_003217
TCONS_00006341 other downstream 334269 7150274 ~ 7150366 (+) False XLOC_003217
TCONS_00006342 other downstream 334542 7150547 ~ 7150640 (+) True XLOC_003217
TCONS_00006343 other downstream 334815 7150820 ~ 7150906 (+) True XLOC_003218

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
striped catfish (Pangasianodon hypophthalmus) TU184699 True 2032 lncRNA 0.43 2 NC_047603.1 28676813 ~ 28678989 (+)